A Global Platform for Genomic Surveillance.
How Pathogenwatch Works
Upload
Upload genome assemblies and metadata, or view all publicly available genomes.
Analyse
Generate results including MLST, AMR predictions, clustering of genomes, and interactive visualisation of metadata.
Explore
Compare results with publicly available genomes within a species reference tree.
Organisms
Pathogenwatch provides species and taxonomy prediction for over 60,000 variants of bacteria, viruses, and fungi.
MLST prediction is available for over 100 species using schemes from PubMLST, Pasteur, and Enterobase.
cgMLST calling and clustering is available for 20 schemes.
Features
| Anonymous User | Signed-in User |
|---|---|
| Access public genomes | Upload genomes for analysis |
| cgMLST clustering (public genomes only) | cgMLST clustering (public and uploaded genomes) |
| Access public collections | Create collections of up to 5000 genomes |
| View single genome reports | View reports & download genomes |